Hallie Arno GenARCC Seminar

Genomic Differences Between Aquaculture and Wild Salmon Populations at Climate Associated Loci

Hallie Arno

GenARCC Seminar

hearno@mun.ca

Atlantic Salmon Aquaculture

Climate Changing

Projected changes in annual temperature from the 1986 to 2005 reference period. Changes are for the end of the century assuming a high global emission scenario.

Phylogeographic Groups

Nugent et al., 2024

How do wild and aquaculture fish differ at climate-associated alleles?

How do wild and aquaculture fish differ at climate-associated alleles?

  • 220k SNPs
  • 5,267 Fish
  • 3 Phylogeographic groups (STL, NFL, LAB)

Three Phylogrographic Groups

How do wild and aquaculture fish differ?

Aquaculture / Wild

How do wild and aquaculture fish differ?

How do wild and aquaculture fish differ?

Aquaculture / Wild

FST between wild and aquaculture fish at each region

FST between wild and aquaculture fish

How do wild and aquaculture fish differ at SNPs associated with climate?

Determining differneces in SNPs associated with climate

  • RDA (redundancy analysis)
  • Compare SNPs at RDA outliers
  • Compare RDA outliers to FST outliers
  • Gene Ontology Enrichment Analysis

Climate-Associated SNPs

How much overlap?

Are genomes more divergent at climate-associated SNPs?

Between Rivers

River-Specific Climate-Associated FST

Gene Pathways

Gene Ontology Enrichment Analysis of RDA outliers from ShinyGO.

Acknowledgements

  • Co-Supervisors: Dr. Ian Fleming, Dr. Ian Bradbury, Dr. Sarah Lehnert
  • Project mentorship: Dr. Tony Kess
  • Funding: Memorial University, Foundation for the Conservation of Atlantic Salmon, Fisheries and Oceans Canada